Mercurial > repos > iuc > package_python_2_7_deeptools_1_5_11
diff tool_dependencies.xml @ 3:6fe93c81bcd0 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_11 commit 743caa3d7198c38c8f3d9f90e4aae16f76cfd7f2-dirty
| author | iuc |
|---|---|
| date | Tue, 22 Sep 2015 15:51:20 -0400 |
| parents | 0eaccc10220c |
| children | b8c1ca4447e7 |
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--- a/tool_dependencies.xml Tue Sep 22 07:17:28 2015 -0400 +++ b/tool_dependencies.xml Tue Sep 22 15:51:20 2015 -0400 @@ -19,7 +19,7 @@ <repository changeset_revision="ed5fdaba090a" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="ucsc_tools" version="312"> - <repository changeset_revision="34e9010db346" name="package_ucsc_tools_312" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <repository changeset_revision="ceda74761368" name="package_ucsc_tools_312" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="python" version="2.7.10"> <repository changeset_revision="08162f8bc496" name="package_python_2_7_10" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> @@ -30,13 +30,10 @@ <action type="setup_python_environment"> <repository changeset_revision="08162f8bc496" name="package_python_2_7_10" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="python" version="2.7.10" /> - </repository> + </repository> <repository changeset_revision="dd8ace13f3aa" name="package_python_2_7_pysam_0_8_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="pysam" version="0.8.3" /> </repository> - <repository changeset_revision="ed5fdaba090a" name="package_python_2_7_bx_python_0_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> - <package name="bx-python" version="0.7.2" /> - </repository> <repository changeset_revision="8d42102c4e36" name="package_python_2_7_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="numpy" version="1.9" /> </repository> @@ -46,10 +43,13 @@ <repository changeset_revision="7002d3382856" name="package_python_2_7_scipy_0_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="scipy" version="0.14" /> </repository> + <repository changeset_revision="ed5fdaba090a" name="package_python_2_7_bx_python_0_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <package name="bx-python" version="0.7.2" /> + </repository> <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="samtools" version="0.1.19" /> </repository> - <repository changeset_revision="34e9010db346" name="package_ucsc_tools_312" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> + <repository changeset_revision="ceda74761368" name="package_ucsc_tools_312" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu"> <package name="ucsc_tools" version="312" /> </repository> <package>https://github.com/fidelram/deepTools/archive/1.5.11.tar.gz</package> @@ -61,24 +61,6 @@ <environment_variable action="set_to" name="DEEPTOOLS_ROOT_PATH">$INSTALL_DIR</environment_variable> <environment_variable action="set_to" name="DEEPTOOLS_PYTHONPATH">$INSTALL_DIR</environment_variable> <environment_variable action="set_to" name="DEEPTOOLS_PATH">$INSTALL_DIR/bin</environment_variable> - <!-- include samtools into PATH --> - <environment_variable action="prepend_to" name="PATH">$ENV[BAM_ROOT]/bin</environment_variable> - <!-- include numpy --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable> - <!-- include matplotlib --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable> - <!-- include scipy --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable> - <!-- include bx-python --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_BX_PYTHON]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_BX_PYTHON]</environment_variable> - <!-- include pysam --> - <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_PYSAM]</environment_variable> - <environment_variable action="prepend_to" name="PATH">$ENV[PATH_PYSAM]</environment_variable> - <!-- include ucsc tools --> - <environment_variable action="prepend_to" name="PATH">$ENV[UCSC_TOOLS_ROOT_PATH]</environment_variable> <!-- libpng lib path --> <environment_variable action="set_to" name="LIBPNG_LIB_PATH">$ENV[LIBPNG_LIB_PATH]</environment_variable> <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[LIBPNG_LIB_PATH]</environment_variable>